Run ID: ERR216991
Sample name:
Date: 31-03-2023 15:57:52
Number of reads: 1646275
Percentage reads mapped: 99.39
Strain: lineage4.3.4.2.1
Drug-resistance: RR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 0.99 |
lineage4.3.4 | Euro-American (LAM) | LAM | RD174 | 1.0 |
lineage4.3.4.2 | Euro-American (LAM) | LAM1;LAM4;LAM11 | RD174 | 1.0 |
lineage4.3.4.2.1 | Euro-American (LAM) | LAM11 | RD174 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rpoB | 761155 | p.Ser450Leu | missense_variant | 1.0 | rifampicin |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 6140 | p.Val301Leu | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
mshA | 576779 | p.Val478Met | missense_variant | 0.12 |
ccsA | 619740 | c.-151C>T | upstream_gene_variant | 0.13 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 766076 | p.Glu903Lys | missense_variant | 0.14 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1304159 | p.Val410Gly | missense_variant | 0.27 |
fbiC | 1304674 | p.Gly582Arg | missense_variant | 0.11 |
Rv1258c | 1407468 | c.-128C>T | upstream_gene_variant | 0.2 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1476380 | n.2723G>A | non_coding_transcript_exon_variant | 0.13 |
fabG1 | 1674076 | p.Thr213Ala | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2155690 | p.Leu141Ser | missense_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
Rv2752c | 3067031 | c.-840G>A | upstream_gene_variant | 0.12 |
thyA | 3073806 | c.666C>G | synonymous_variant | 0.26 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612009 | p.Ala370Thr | missense_variant | 1.0 |
fbiB | 3640689 | c.-846C>T | upstream_gene_variant | 0.11 |
fbiB | 3641124 | c.-411C>T | upstream_gene_variant | 0.13 |
alr | 3840719 | c.702A>G | synonymous_variant | 1.0 |
alr | 3840903 | p.Pro173Leu | missense_variant | 0.12 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4038857 | c.1848C>A | synonymous_variant | 0.24 |
panD | 4044385 | c.-104A>G | upstream_gene_variant | 0.11 |
embC | 4240914 | p.Met351Thr | missense_variant | 0.13 |
embC | 4241638 | c.1776G>A | synonymous_variant | 0.14 |
embC | 4242425 | p.Arg855Gly | missense_variant | 0.27 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4242686 | p.Gln942* | stop_gained | 0.18 |
aftB | 4267517 | c.1320A>G | synonymous_variant | 0.11 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |